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Test workflow #40

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Commits on Apr 27, 2021

  1. Update VMSdatacall_proposedWorkflow.r 

    write tables
    @roimartins
    roimartins authored Apr 27, 2021
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Commits on Dec 3, 2021

  1. Create global.R 

    global r file to be run at the beggining of the VMS data processing.
    @roimartins
    roimartins authored Dec 3, 2021
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  2. Create 1_eflalo_tacsat_preprocessing.R 

    1st step data cleaning and preprocessing
    @roimartins
    roimartins authored Dec 3, 2021
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  3. Rename global.R to 0_global.R

    @roimartins
    roimartins authored Dec 3, 2021
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  4. Create 2_eflalo_tacsat_analysis.R 

    merge efallo and tacsat , coupe vms with logbook data
    @roimartins
    roimartins authored Dec 3, 2021
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  5. Create 3_data_submission.R 

    foramting, DATSU , quality control and submission
    @roimartins
    roimartins authored Dec 3, 2021
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Commits on Dec 13, 2021

  1. Create 1_eflalo_tacsat_preprocessing.R 

    copy of the script created in the personal folder
    @mrska
    mrska committed Dec 13, 2021
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  2. add functions which will become icesDATSU

    @colinpmillar
    colinpmillar committed Dec 13, 2021
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  3. * add function to get dataset version IDs and add dependencies

    @colinpmillar
    colinpmillar committed Dec 13, 2021
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Commits on Dec 14, 2021

  1. Add main web services, and a worksheet to test things

    @colinpmillar
    colinpmillar committed Dec 14, 2021
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  2. copied the four files comprising the workflow over to my own folder, … 

    …unchanged
    Gonzalez-Mirelis committed Dec 14, 2021
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  3. Changed the order of tho checks 'Remove trip with overlap with anothe… 

    …r trip' and 'Remove records with arrival date before departure time'. Added proposal to fix 'overlapping trips' part.
    @mrska
    mrska committed Dec 14, 2021
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  4. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    @mrska
    mrska committed Dec 14, 2021
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  5. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    Gonzalez-Mirelis committed Dec 14, 2021
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  6. added necessary shapfiles, functions, and script to assign metier to … 

    …eflalo data
    Gonzalez-Mirelis committed Dec 14, 2021
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  7. add feild types and code to create dummy data

    @colinpmillar
    colinpmillar committed Dec 14, 2021
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  8. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    Gonzalez-Mirelis committed Dec 14, 2021
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  9. added Einar's QC markdown

    @colinpmillar
    Neil Campbell authored and colinpmillar committed Dec 14, 2021
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  10. merge by area added to assign metier script

    Gonzalez-Mirelis committed Dec 14, 2021
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  11. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    Gonzalez-Mirelis committed Dec 14, 2021
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Commits on Jan 25, 2022

  1. added a function that extracts FAO code from a spatial polygon layer

    Gonzalez-Mirelis committed Jan 25, 2022
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  2. wrote a wrapper for these few lines

    Gonzalez-Mirelis committed Jan 25, 2022
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  3. corrected an object name and removed the unneeded columns from input … 

    …data
    Gonzalez-Mirelis committed Jan 25, 2022
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  4. added the rest of blob/master/Metiers/Scripts/script_metiers.R 

    as well as the few lines needed when target species is known
    Gonzalez-Mirelis committed Jan 25, 2022
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Commits on Feb 2, 2022

  1. commit latest change in workflow development

    @roimartins
    roimartins committed Feb 2, 2022
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  2. commit all changes in workflow for datacall

    @roimartins
    roimartins committed Feb 2, 2022
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  3. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    @roimartins
    roimartins committed Feb 2, 2022
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  4. changes from Marta in the preprocessing stage

    @roimartins
    roimartins committed Feb 2, 2022
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  5. changes to file structure in the folder

    @roimartins
    roimartins committed Feb 2, 2022
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  6. change when table 1 and table 2 are loaded

    @roimartins
    roimartins committed Feb 2, 2022
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Commits on Feb 7, 2022

  1. add lines for WEB API submission

    @colinpmillar
    colinpmillar committed Feb 7, 2022
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  2. further work on DATSU functions

    @colinpmillar
    colinpmillar committed Feb 7, 2022
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  3. small edit: remove argument name from call to screen_vms_file

    @colinpmillar
    colinpmillar committed Feb 7, 2022
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  4. year changed to test with one year only

    @TorstenSchulze
    TorstenSchulze committed Feb 7, 2022
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  5. years changed back to original version

    @TorstenSchulze
    TorstenSchulze committed Feb 7, 2022
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  6. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    @TorstenSchulze
    TorstenSchulze committed Feb 7, 2022
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  7. remove trailing spaces

    @colinpmillar
    colinpmillar committed Feb 7, 2022
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  8. update with colin's changes

    @colinpmillar
    colinpmillar committed Feb 7, 2022
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  9. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    @TorstenSchulze
    TorstenSchulze committed Feb 7, 2022
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  10. add icesConnect to packages to install

    @colinpmillar
    colinpmillar authored Feb 7, 2022
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  11. Update the vessellength category and the submission api part

    @roimartins
    roimartins committed Feb 7, 2022
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Commits on Feb 8, 2022

  1. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    @TorstenSchulze
    TorstenSchulze committed Feb 8, 2022
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  2. settings changed to fit Thuenen folder structure

    @TorstenSchulze
    TorstenSchulze committed Feb 8, 2022
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  3. Codes changed 2022-02-07 by Christian and Torsten

    @TorstenSchulze
    TorstenSchulze committed Feb 8, 2022
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  4. review the submission via API lines

    @roimartins
    roimartins committed Feb 8, 2022
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  5. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    @roimartins
    roimartins committed Feb 8, 2022
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  6. minor typos and comments added

    @roimartins
    roimartins committed Feb 8, 2022
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  7. comments with instructions added

    @roimartins
    roimartins committed Feb 8, 2022
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  8. testing with German data ongoing

    @TorstenSchulze
    TorstenSchulze committed Feb 8, 2022
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  9. wrong folder

    @TorstenSchulze
    TorstenSchulze committed Feb 8, 2022
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Commits on Feb 9, 2022

  1. mimor change only

    @TorstenSchulze
    TorstenSchulze committed Feb 9, 2022
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  2. code is running on German data

    @TorstenSchulze
    TorstenSchulze committed Feb 9, 2022
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Commits on Feb 11, 2022

  1. replace teh sp funciton in VMS points in ICES region by sf lirbary pr… 

    …ocess. Upgrade the poitns in habrour function aprameters .
    @roimartins
    roimartins committed Feb 11, 2022
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  2. fix vessel length vocabulary references

    @roimartins
    roimartins committed Feb 11, 2022
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  3. remove assignation of loaded files ino variables.

    @roimartins
    roimartins committed Feb 11, 2022
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Commits on Feb 14, 2022

  1. add filter the acgive pings only

    @roimartins
    roimartins committed Feb 14, 2022
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  2. replace empty space by "no_required"

    @roimartins
    roimartins committed Feb 14, 2022
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  3. changes in German data to run test proposed workflow

    @TorstenSchulze
    TorstenSchulze committed Feb 14, 2022
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Commits on Feb 15, 2022

  1. changes in German data to comply with ices datsu rules

    @TorstenSchulze
    TorstenSchulze committed Feb 15, 2022
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  2. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    @TorstenSchulze
    TorstenSchulze committed Feb 15, 2022
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  3. last corrections, code is running for DEU_2020

    @TorstenSchulze
    TorstenSchulze committed Feb 15, 2022
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  4. Update 3_data_submission.R 

    add not required into vessels id's
    @roimartins
    roimartins authored Feb 15, 2022
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  5. Create Data preparation and submission.md 

    quick and dirty first go
    @LaraSalvany
    LaraSalvany authored Feb 15, 2022
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  6. Update Data preparation and submission.md 

    libraries installed in the workflow
    @roimartins
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  7. Update Data preparation and submission.md 

    embed new code
    @roimartins
    roimartins authored Feb 15, 2022
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  8. Update 1_eflalo_tacsat_preprocessing.R

    @roimartins
    roimartins authored Feb 15, 2022
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  9. Update Data preparation and submission.md 

    next go
    @roimartins
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  10. ann. VE-ID fixed

    @TorstenSchulze
    TorstenSchulze committed Feb 15, 2022
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  11. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    @TorstenSchulze
    TorstenSchulze committed Feb 15, 2022
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  12. Update Data preparation and submission.md

    @LaraSalvany
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Commits on Feb 16, 2022

  1. Update Data preparation and submission.md

    @LaraSalvany
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  2. Update Data preparation and submission.md

    @LaraSalvany
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  3. Update Data preparation and submission.md

    @LaraSalvany
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  4. Update Data preparation and submission.md

    @LaraSalvany
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  5. runs severas years

    @TorstenSchulze
    TorstenSchulze committed Feb 16, 2022
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  6. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    @TorstenSchulze
    TorstenSchulze committed Feb 16, 2022
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  7. fix the VE_LEN field in table 1 and table 2

    @roimartins
    roimartins committed Feb 16, 2022
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  8. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    @roimartins
    roimartins committed Feb 16, 2022
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  9. add rm.na

    @roimartins
    roimartins committed Feb 16, 2022
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  10. change spaces

    @roimartins
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  11. update the main folder files with suggested changes

    @roimartins
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  12. add country code check and na.rm TRUE

    @roimartins
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  13. Update Data preparation and submission.md 

    installation
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  14. Update Data preparation and submission.md

    @roimartins
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Commits on Feb 17, 2022

  1. QC-markdown code working on 2022 datsu format

    @TorstenSchulze
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  2. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
    @TorstenSchulze
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  3. QC-markdown code working on 2022 datsu format

    @TorstenSchulze
    TorstenSchulze committed Feb 17, 2022
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  4. QC-codes without national pathes to data

    @TorstenSchulze
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Commits on Feb 18, 2022

  1. Update Data preparation and submission.md

    @LaraSalvany
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  2. Update Data preparation and submission.md

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  3. Update Data preparation and submission.md

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  4. Update Data preparation and submission.md

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  5. Update Data preparation and submission.md

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  6. Update Data preparation and submission.md

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  7. Update Data preparation and submission.md

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  8. Update Data preparation and submission.md

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  9. Update Data preparation and submission.md

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  10. Update Data preparation and submission.md

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  11. Update Data preparation and submission.md

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  12. Update Data preparation and submission.md

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  13. Update Data preparation and submission.md

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  14. Update Data preparation and submission.md

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  15. Update Data preparation and submission.md

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  21. Update Data preparation and submission.md 

    index
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  28. headers updated

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  29. Merge branch 'test-workflow' of https://github.com/ices-eg/wg_WGSFD i… 

    …nto test-workflow
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  30. Update Data preparation and submission.md

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Commits on Feb 19, 2022

  1. Update Data preparation and submission.md

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